Bacterial molecular networks
Subtitle: methods and protocols
By: edited by Jacques van Helden and Ariane Toussaint, Denis Thieffry
Series: Methods in molecular biology -- 804; Springer protocols; Methods in molecular biology (Clifton, N.J.) -- v. 804.; Springer protocols
Publisher: Humana Press
Published: 2012
Place of publication: New York, NY
Language: eng
Number of pages: 546
ISBN-13: 9781617793608; 9781617793615
Subjects: Genetics; Methods; Gene Regulatory Networks; Cell interaction; Systems Biology; Laboratory manuals; Bacterial genetics; Laboratory Manuals; Bacteria
Notes: Includes bibliographical references and index.
Table of contents: title: Bacterial molecular networks : bridging the gap between functional genomics and dynamical modelling / Jacques van Helden, Ariane Toussaint, and Denis Thieffry; title: Bacterial interactomes : from interactions to networks / Emmanuelle Bouveret and Christine Brun; title: From bacterial to microbial ecosystems (metagenomics) / Shannon J. Williamson and Shibu Yooseph; title: Prokaryote genome fluidity : toward a system approach of the mobilome / Ariane Toussaint and Mick Chandler; title: Reticulate classification of mosaic microbial genomes using NeAT website / Gipsi Lima-Mendez; title: From metabolic reactions to networks and pathways / Masanori Arita; title: Predicting metabolic pathways by sub-network extraction / Karoline Faust and Jacques van Helden; title: Directed module detection in a large-scale expression compendium / Qiang Fu ... [et al.]; title: Using phylogenetic profiles to predict functional relationships / Matteo Pellegrini; title: Extracting regulatory networks of Escherichia coli from RegulonDB / Heladia Salgado ... [et al.]; title: Browsing metabolic and regulatory networks with BioCyc / Mario Latendresse, Suzanne Paley, and Peter D. Karp; title: Algorithms for systematic identification of small subgraphs / Joseph Geraci, Geoffrey Liu, and Igor Jurisica; title: The degree distribution of ntworks : statistical model selection / William P. Kelly, Piers J. Ingram, and Michael P.H. Stumpf; title: MAVisto : a tool for biological network motif analysis / Henning Schwöbbermeyer and Röbbe Wünschiers; title: Using MCL to extract clusters from networks / Stijn van Dongen and Cei Abreu-Goodger; title: Protein complex prediction with RNSC / Andrew D. King, Nataša Pržulj, and Igor Jurisica; title: Network analysis and protein function prediction with the PRODISTIN web site / Anaïs Baudot, Ouissem Souiai, and Christine Brun; title: Using NeAT Toolbox to compare networks to networks, clusters to clusters, and network to clusters / Sylvain Brohée; title: Analyzing biological data using R : methods for graphs and networks / Nolwenn Le Meur and Robert Gentleman; title: Detecting structural invariants in biological reaction networks / Jörn Behre ... [et al.]; title: Petri nets in Snoopy : a unifying framework for the graphical display, computational modelling, and simulation of bacterial regulatory networks / Wolfgang Marwan, Christian Rohr, and Monika Heiner; title: Genetic Network Analyzer : a tool for the qualitative modeling and simulation of bacterial regulatory networks / Grégory Batt ... [et al.]; title: Logical modelling of gene regulatory networks with GINsim / Claudine Chaouiya, Aurélien Naldi, and Denis Thieffry; title: Modelling the evolution of mutualistic symbioses / Maren L. Friesen and Emily I. Jones; title: Modelling the onset of virulence in pthogenic bacteria / Wilfred D. Kepseu ... [et al.]; title: Spatial and stochastic cellular modeling with the Smoldyn Simulator / Steven S. Andrews.